Multiple sequence alignment - TraesCS2D01G275600

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G275600 chr2D 100.000 1732 0 0 1 1732 345247090 345248821 0.000000e+00 3199.0
1 TraesCS2D01G275600 chr2D 100.000 48 0 0 2145 2192 345249234 345249281 3.000000e-14 89.8
2 TraesCS2D01G275600 chr2D 92.727 55 4 0 194 248 343161166 343161112 1.800000e-11 80.5
3 TraesCS2D01G275600 chr2A 87.600 1000 53 28 497 1456 457221136 457222104 0.000000e+00 1094.0
4 TraesCS2D01G275600 chr2A 93.074 462 17 9 33 492 457220379 457220827 0.000000e+00 662.0
5 TraesCS2D01G275600 chr2B 91.601 762 15 12 33 746 410941825 410942585 0.000000e+00 1007.0
6 TraesCS2D01G275600 chr2B 92.348 575 28 9 884 1447 410942889 410943458 0.000000e+00 804.0
7 TraesCS2D01G275600 chr2B 86.154 65 9 0 1606 1670 674738473 674738409 1.090000e-08 71.3
8 TraesCS2D01G275600 chr1D 80.591 541 47 31 888 1393 471848825 471849342 4.450000e-97 364.0
9 TraesCS2D01G275600 chr1D 85.246 61 9 0 1610 1670 481438113 481438173 1.820000e-06 63.9
10 TraesCS2D01G275600 chr1B 79.777 539 53 37 888 1393 655858540 655859055 7.490000e-90 340.0
11 TraesCS2D01G275600 chr1B 88.542 96 7 1 184 279 655858018 655858109 1.780000e-21 113.0
12 TraesCS2D01G275600 chr1A 77.033 209 32 12 554 758 566123573 566123769 2.980000e-19 106.0
13 TraesCS2D01G275600 chr1A 82.979 94 13 3 1581 1673 443195529 443195438 5.020000e-12 82.4
14 TraesCS2D01G275600 chr5B 96.875 32 1 0 1640 1671 515459470 515459501 1.000000e-03 54.7
15 TraesCS2D01G275600 chr4B 96.774 31 1 0 1640 1670 177919932 177919962 4.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G275600 chr2D 345247090 345249281 2191 False 1644.4 3199 100.0000 1 2192 2 chr2D.!!$F1 2191
1 TraesCS2D01G275600 chr2A 457220379 457222104 1725 False 878.0 1094 90.3370 33 1456 2 chr2A.!!$F1 1423
2 TraesCS2D01G275600 chr2B 410941825 410943458 1633 False 905.5 1007 91.9745 33 1447 2 chr2B.!!$F1 1414
3 TraesCS2D01G275600 chr1D 471848825 471849342 517 False 364.0 364 80.5910 888 1393 1 chr1D.!!$F1 505
4 TraesCS2D01G275600 chr1B 655858018 655859055 1037 False 226.5 340 84.1595 184 1393 2 chr1B.!!$F1 1209

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
919 1440 0.179134 CCTCGGAACCTGAAGCTACG 60.179 60.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2160 2733 0.105504 GGGAAGCCTTGCCCCATTAT 60.106 55.0 3.13 0.0 39.89 1.28 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.828868 TCTGTGTGTCCAGTGCCC 59.171 61.111 0.00 0.00 34.02 5.36
18 19 1.766059 TCTGTGTGTCCAGTGCCCT 60.766 57.895 0.00 0.00 34.02 5.19
19 20 1.302033 CTGTGTGTCCAGTGCCCTC 60.302 63.158 0.00 0.00 0.00 4.30
20 21 2.357517 GTGTGTCCAGTGCCCTCG 60.358 66.667 0.00 0.00 0.00 4.63
21 22 3.625897 TGTGTCCAGTGCCCTCGG 61.626 66.667 0.00 0.00 0.00 4.63
22 23 3.626924 GTGTCCAGTGCCCTCGGT 61.627 66.667 0.00 0.00 0.00 4.69
23 24 2.118732 TGTCCAGTGCCCTCGGTA 59.881 61.111 0.00 0.00 0.00 4.02
24 25 1.534476 TGTCCAGTGCCCTCGGTAA 60.534 57.895 0.00 0.00 0.00 2.85
25 26 1.122632 TGTCCAGTGCCCTCGGTAAA 61.123 55.000 0.00 0.00 0.00 2.01
26 27 0.672711 GTCCAGTGCCCTCGGTAAAC 60.673 60.000 0.00 0.00 0.00 2.01
27 28 1.740296 CCAGTGCCCTCGGTAAACG 60.740 63.158 0.00 0.00 46.11 3.60
159 160 6.441093 TGTTCGACAAGTAGAACCGTATAT 57.559 37.500 18.94 0.00 42.17 0.86
160 161 7.552458 TGTTCGACAAGTAGAACCGTATATA 57.448 36.000 18.94 1.42 42.17 0.86
161 162 8.158169 TGTTCGACAAGTAGAACCGTATATAT 57.842 34.615 18.94 0.00 42.17 0.86
205 215 1.153667 GCAGCAGAGGAAGAGTCGG 60.154 63.158 0.00 0.00 0.00 4.79
319 333 3.748568 AGAAGCTGAAATTCCTCGTGTTC 59.251 43.478 0.00 0.00 0.00 3.18
320 334 3.126001 AGCTGAAATTCCTCGTGTTCA 57.874 42.857 0.00 0.00 0.00 3.18
328 342 5.801350 AATTCCTCGTGTTCATGTACATG 57.199 39.130 26.83 26.83 40.09 3.21
331 345 2.354704 CCTCGTGTTCATGTACATGGGT 60.355 50.000 30.56 0.00 39.24 4.51
353 367 1.477685 GGTCCTGGTCGTGAAAGGGA 61.478 60.000 0.00 0.00 0.00 4.20
400 416 2.415168 ACACGCATCGTCCTTTTATGTG 59.585 45.455 0.00 0.00 38.32 3.21
770 1112 2.932663 GCATGTGTGTGCACCTACT 58.067 52.632 15.69 1.16 44.65 2.57
811 1160 4.778427 CCCCTCTCACCTCTATATAAACCC 59.222 50.000 0.00 0.00 0.00 4.11
866 1387 3.999663 CAGCAGAAACAAACCAAACCAAA 59.000 39.130 0.00 0.00 0.00 3.28
868 1389 3.126171 GCAGAAACAAACCAAACCAAACC 59.874 43.478 0.00 0.00 0.00 3.27
869 1390 4.319177 CAGAAACAAACCAAACCAAACCA 58.681 39.130 0.00 0.00 0.00 3.67
870 1391 4.757149 CAGAAACAAACCAAACCAAACCAA 59.243 37.500 0.00 0.00 0.00 3.67
871 1392 5.239525 CAGAAACAAACCAAACCAAACCAAA 59.760 36.000 0.00 0.00 0.00 3.28
872 1393 5.471797 AGAAACAAACCAAACCAAACCAAAG 59.528 36.000 0.00 0.00 0.00 2.77
873 1394 4.625607 ACAAACCAAACCAAACCAAAGA 57.374 36.364 0.00 0.00 0.00 2.52
874 1395 5.172687 ACAAACCAAACCAAACCAAAGAT 57.827 34.783 0.00 0.00 0.00 2.40
875 1396 5.182487 ACAAACCAAACCAAACCAAAGATC 58.818 37.500 0.00 0.00 0.00 2.75
876 1397 5.045942 ACAAACCAAACCAAACCAAAGATCT 60.046 36.000 0.00 0.00 0.00 2.75
877 1398 4.937201 ACCAAACCAAACCAAAGATCTC 57.063 40.909 0.00 0.00 0.00 2.75
880 1401 4.584325 CCAAACCAAACCAAAGATCTCAGA 59.416 41.667 0.00 0.00 0.00 3.27
886 1407 5.180868 CCAAACCAAAGATCTCAGAAGTCAG 59.819 44.000 0.00 0.00 0.00 3.51
919 1440 0.179134 CCTCGGAACCTGAAGCTACG 60.179 60.000 0.00 0.00 0.00 3.51
926 1447 2.165319 ACCTGAAGCTACGAAACACC 57.835 50.000 0.00 0.00 0.00 4.16
938 1459 1.470632 CGAAACACCAAGCAAGGCAAA 60.471 47.619 0.00 0.00 0.00 3.68
939 1460 2.802774 CGAAACACCAAGCAAGGCAAAT 60.803 45.455 0.00 0.00 0.00 2.32
944 1470 3.118298 ACACCAAGCAAGGCAAATCTTTT 60.118 39.130 0.00 0.00 0.00 2.27
946 1472 3.389002 ACCAAGCAAGGCAAATCTTTTCT 59.611 39.130 0.00 0.00 0.00 2.52
949 1475 2.564504 AGCAAGGCAAATCTTTTCTCCC 59.435 45.455 0.00 0.00 0.00 4.30
950 1476 2.354103 GCAAGGCAAATCTTTTCTCCCC 60.354 50.000 0.00 0.00 0.00 4.81
951 1477 2.234661 CAAGGCAAATCTTTTCTCCCCC 59.765 50.000 0.00 0.00 0.00 5.40
952 1478 1.718801 AGGCAAATCTTTTCTCCCCCT 59.281 47.619 0.00 0.00 0.00 4.79
953 1479 2.926329 AGGCAAATCTTTTCTCCCCCTA 59.074 45.455 0.00 0.00 0.00 3.53
954 1480 3.053320 AGGCAAATCTTTTCTCCCCCTAG 60.053 47.826 0.00 0.00 0.00 3.02
969 1497 3.459969 CCCCCTAGCTAGATCAAAACCTT 59.540 47.826 22.70 0.00 0.00 3.50
990 1525 3.695606 TCTCCCGTCTGCACAGCC 61.696 66.667 0.00 0.00 0.00 4.85
1065 1600 0.958876 TGCTCTTGGTGCAGATGCTG 60.959 55.000 6.35 0.00 42.66 4.41
1327 1895 3.650647 TTGGAGATCAACTGGCCAC 57.349 52.632 0.00 0.00 0.00 5.01
1334 1902 0.320771 ATCAACTGGCCACTCGACAC 60.321 55.000 0.00 0.00 0.00 3.67
1394 1967 5.687770 TGTTCATTCTTTCAAGCAATCGA 57.312 34.783 0.00 0.00 0.00 3.59
1397 1970 6.072563 TGTTCATTCTTTCAAGCAATCGATGA 60.073 34.615 0.00 0.00 0.00 2.92
1402 1975 5.478407 TCTTTCAAGCAATCGATGACAGTA 58.522 37.500 0.00 0.00 0.00 2.74
1428 2001 7.323420 TGTGTATGAATTGTCTCTGGTCTTAG 58.677 38.462 0.00 0.00 0.00 2.18
1449 2022 5.682943 AGATGTTTCGACCGATTTCAAAA 57.317 34.783 0.00 0.00 0.00 2.44
1450 2023 5.689819 AGATGTTTCGACCGATTTCAAAAG 58.310 37.500 0.00 0.00 0.00 2.27
1451 2024 4.886247 TGTTTCGACCGATTTCAAAAGT 57.114 36.364 0.00 0.00 0.00 2.66
1452 2025 5.987777 TGTTTCGACCGATTTCAAAAGTA 57.012 34.783 0.00 0.00 0.00 2.24
1453 2026 6.548441 TGTTTCGACCGATTTCAAAAGTAT 57.452 33.333 0.00 0.00 0.00 2.12
1455 2028 5.539582 TTCGACCGATTTCAAAAGTATGG 57.460 39.130 0.00 0.00 0.00 2.74
1456 2029 3.936453 TCGACCGATTTCAAAAGTATGGG 59.064 43.478 0.00 0.00 0.00 4.00
1457 2030 3.936453 CGACCGATTTCAAAAGTATGGGA 59.064 43.478 0.00 0.00 0.00 4.37
1458 2031 4.034048 CGACCGATTTCAAAAGTATGGGAG 59.966 45.833 0.00 0.00 0.00 4.30
1459 2032 3.694566 ACCGATTTCAAAAGTATGGGAGC 59.305 43.478 0.00 0.00 0.00 4.70
1460 2033 3.242739 CCGATTTCAAAAGTATGGGAGCG 60.243 47.826 0.00 0.00 0.00 5.03
1461 2034 3.374058 CGATTTCAAAAGTATGGGAGCGT 59.626 43.478 0.00 0.00 0.00 5.07
1462 2035 4.494199 CGATTTCAAAAGTATGGGAGCGTC 60.494 45.833 0.00 0.00 0.00 5.19
1463 2036 3.695830 TTCAAAAGTATGGGAGCGTCT 57.304 42.857 0.00 0.00 0.00 4.18
1464 2037 4.811969 TTCAAAAGTATGGGAGCGTCTA 57.188 40.909 0.00 0.00 0.00 2.59
1465 2038 4.811969 TCAAAAGTATGGGAGCGTCTAA 57.188 40.909 0.00 0.00 0.00 2.10
1466 2039 5.155278 TCAAAAGTATGGGAGCGTCTAAA 57.845 39.130 0.00 0.00 0.00 1.85
1467 2040 5.741011 TCAAAAGTATGGGAGCGTCTAAAT 58.259 37.500 0.00 0.00 0.00 1.40
1468 2041 6.880484 TCAAAAGTATGGGAGCGTCTAAATA 58.120 36.000 0.00 0.00 0.00 1.40
1469 2042 7.506114 TCAAAAGTATGGGAGCGTCTAAATAT 58.494 34.615 0.00 0.00 0.00 1.28
1470 2043 7.656137 TCAAAAGTATGGGAGCGTCTAAATATC 59.344 37.037 0.00 0.00 0.00 1.63
1471 2044 6.665992 AAGTATGGGAGCGTCTAAATATCA 57.334 37.500 0.00 0.00 0.00 2.15
1472 2045 6.274157 AGTATGGGAGCGTCTAAATATCAG 57.726 41.667 0.00 0.00 0.00 2.90
1473 2046 5.775701 AGTATGGGAGCGTCTAAATATCAGT 59.224 40.000 0.00 0.00 0.00 3.41
1474 2047 5.552870 ATGGGAGCGTCTAAATATCAGTT 57.447 39.130 0.00 0.00 0.00 3.16
1475 2048 6.665992 ATGGGAGCGTCTAAATATCAGTTA 57.334 37.500 0.00 0.00 0.00 2.24
1476 2049 6.474140 TGGGAGCGTCTAAATATCAGTTAA 57.526 37.500 0.00 0.00 0.00 2.01
1477 2050 6.278363 TGGGAGCGTCTAAATATCAGTTAAC 58.722 40.000 0.00 0.00 0.00 2.01
1478 2051 6.097839 TGGGAGCGTCTAAATATCAGTTAACT 59.902 38.462 1.12 1.12 0.00 2.24
1479 2052 6.421202 GGGAGCGTCTAAATATCAGTTAACTG 59.579 42.308 26.60 26.60 45.08 3.16
1503 2076 5.633830 AAAAATGATCGCATCAGTCACTT 57.366 34.783 5.33 0.00 43.53 3.16
1504 2077 5.633830 AAAATGATCGCATCAGTCACTTT 57.366 34.783 5.33 0.00 43.53 2.66
1505 2078 4.611310 AATGATCGCATCAGTCACTTTG 57.389 40.909 5.33 0.00 43.53 2.77
1506 2079 3.044235 TGATCGCATCAGTCACTTTGT 57.956 42.857 0.00 0.00 33.59 2.83
1507 2080 3.402110 TGATCGCATCAGTCACTTTGTT 58.598 40.909 0.00 0.00 33.59 2.83
1508 2081 3.814842 TGATCGCATCAGTCACTTTGTTT 59.185 39.130 0.00 0.00 33.59 2.83
1509 2082 3.878086 TCGCATCAGTCACTTTGTTTC 57.122 42.857 0.00 0.00 0.00 2.78
1510 2083 3.466836 TCGCATCAGTCACTTTGTTTCT 58.533 40.909 0.00 0.00 0.00 2.52
1511 2084 4.627058 TCGCATCAGTCACTTTGTTTCTA 58.373 39.130 0.00 0.00 0.00 2.10
1512 2085 5.237815 TCGCATCAGTCACTTTGTTTCTAT 58.762 37.500 0.00 0.00 0.00 1.98
1513 2086 5.700832 TCGCATCAGTCACTTTGTTTCTATT 59.299 36.000 0.00 0.00 0.00 1.73
1514 2087 6.017933 CGCATCAGTCACTTTGTTTCTATTC 58.982 40.000 0.00 0.00 0.00 1.75
1515 2088 6.017933 GCATCAGTCACTTTGTTTCTATTCG 58.982 40.000 0.00 0.00 0.00 3.34
1516 2089 6.347725 GCATCAGTCACTTTGTTTCTATTCGT 60.348 38.462 0.00 0.00 0.00 3.85
1517 2090 6.764877 TCAGTCACTTTGTTTCTATTCGTC 57.235 37.500 0.00 0.00 0.00 4.20
1518 2091 5.401376 TCAGTCACTTTGTTTCTATTCGTCG 59.599 40.000 0.00 0.00 0.00 5.12
1519 2092 4.684703 AGTCACTTTGTTTCTATTCGTCGG 59.315 41.667 0.00 0.00 0.00 4.79
1520 2093 4.682860 GTCACTTTGTTTCTATTCGTCGGA 59.317 41.667 0.00 0.00 0.00 4.55
1521 2094 5.347907 GTCACTTTGTTTCTATTCGTCGGAT 59.652 40.000 0.00 0.00 0.00 4.18
1522 2095 5.575606 TCACTTTGTTTCTATTCGTCGGATC 59.424 40.000 0.00 0.00 0.00 3.36
1523 2096 5.347635 CACTTTGTTTCTATTCGTCGGATCA 59.652 40.000 0.00 0.00 0.00 2.92
1524 2097 5.929992 ACTTTGTTTCTATTCGTCGGATCAA 59.070 36.000 0.00 0.00 0.00 2.57
1525 2098 6.425721 ACTTTGTTTCTATTCGTCGGATCAAA 59.574 34.615 0.00 0.00 0.00 2.69
1526 2099 6.788684 TTGTTTCTATTCGTCGGATCAAAA 57.211 33.333 0.00 0.00 0.00 2.44
1527 2100 6.788684 TGTTTCTATTCGTCGGATCAAAAA 57.211 33.333 0.00 0.00 0.00 1.94
1528 2101 6.595794 TGTTTCTATTCGTCGGATCAAAAAC 58.404 36.000 9.65 9.65 0.00 2.43
1529 2102 6.425721 TGTTTCTATTCGTCGGATCAAAAACT 59.574 34.615 14.45 0.00 0.00 2.66
1530 2103 6.403333 TTCTATTCGTCGGATCAAAAACTG 57.597 37.500 0.00 0.00 0.00 3.16
1531 2104 5.475719 TCTATTCGTCGGATCAAAAACTGT 58.524 37.500 0.00 0.00 0.00 3.55
1532 2105 4.663636 ATTCGTCGGATCAAAAACTGTC 57.336 40.909 0.00 0.00 0.00 3.51
1533 2106 2.409975 TCGTCGGATCAAAAACTGTCC 58.590 47.619 0.00 0.00 0.00 4.02
1535 2108 3.676091 CGGATCAAAAACTGTCCGC 57.324 52.632 0.00 0.00 45.80 5.54
1536 2109 0.871722 CGGATCAAAAACTGTCCGCA 59.128 50.000 0.00 0.00 45.80 5.69
1537 2110 1.399727 CGGATCAAAAACTGTCCGCAC 60.400 52.381 0.00 0.00 45.80 5.34
1538 2111 1.880027 GGATCAAAAACTGTCCGCACT 59.120 47.619 0.00 0.00 0.00 4.40
1539 2112 2.293399 GGATCAAAAACTGTCCGCACTT 59.707 45.455 0.00 0.00 0.00 3.16
1540 2113 3.555518 GATCAAAAACTGTCCGCACTTC 58.444 45.455 0.00 0.00 0.00 3.01
1541 2114 1.329292 TCAAAAACTGTCCGCACTTCG 59.671 47.619 0.00 0.00 38.08 3.79
1542 2115 1.063469 CAAAAACTGTCCGCACTTCGT 59.937 47.619 0.00 0.00 36.19 3.85
1543 2116 0.935196 AAAACTGTCCGCACTTCGTC 59.065 50.000 0.00 0.00 36.19 4.20
1544 2117 0.104304 AAACTGTCCGCACTTCGTCT 59.896 50.000 0.00 0.00 36.19 4.18
1545 2118 0.104304 AACTGTCCGCACTTCGTCTT 59.896 50.000 0.00 0.00 36.19 3.01
1546 2119 0.318784 ACTGTCCGCACTTCGTCTTC 60.319 55.000 0.00 0.00 36.19 2.87
1547 2120 0.039074 CTGTCCGCACTTCGTCTTCT 60.039 55.000 0.00 0.00 36.19 2.85
1548 2121 0.387929 TGTCCGCACTTCGTCTTCTT 59.612 50.000 0.00 0.00 36.19 2.52
1549 2122 1.061485 GTCCGCACTTCGTCTTCTTC 58.939 55.000 0.00 0.00 36.19 2.87
1550 2123 0.038526 TCCGCACTTCGTCTTCTTCC 60.039 55.000 0.00 0.00 36.19 3.46
1551 2124 0.038159 CCGCACTTCGTCTTCTTCCT 60.038 55.000 0.00 0.00 36.19 3.36
1552 2125 1.341606 CGCACTTCGTCTTCTTCCTC 58.658 55.000 0.00 0.00 0.00 3.71
1553 2126 1.715993 GCACTTCGTCTTCTTCCTCC 58.284 55.000 0.00 0.00 0.00 4.30
1554 2127 1.673329 GCACTTCGTCTTCTTCCTCCC 60.673 57.143 0.00 0.00 0.00 4.30
1555 2128 1.066787 CACTTCGTCTTCTTCCTCCCC 60.067 57.143 0.00 0.00 0.00 4.81
1556 2129 1.267121 CTTCGTCTTCTTCCTCCCCA 58.733 55.000 0.00 0.00 0.00 4.96
1557 2130 1.205893 CTTCGTCTTCTTCCTCCCCAG 59.794 57.143 0.00 0.00 0.00 4.45
1558 2131 0.408309 TCGTCTTCTTCCTCCCCAGA 59.592 55.000 0.00 0.00 0.00 3.86
1559 2132 1.007238 TCGTCTTCTTCCTCCCCAGAT 59.993 52.381 0.00 0.00 0.00 2.90
1560 2133 1.834263 CGTCTTCTTCCTCCCCAGATT 59.166 52.381 0.00 0.00 0.00 2.40
1561 2134 2.159028 CGTCTTCTTCCTCCCCAGATTC 60.159 54.545 0.00 0.00 0.00 2.52
1562 2135 2.111384 TCTTCTTCCTCCCCAGATTCG 58.889 52.381 0.00 0.00 0.00 3.34
1563 2136 1.139853 CTTCTTCCTCCCCAGATTCGG 59.860 57.143 0.00 0.00 0.00 4.30
1564 2137 0.042731 TCTTCCTCCCCAGATTCGGT 59.957 55.000 0.00 0.00 0.00 4.69
1565 2138 0.466124 CTTCCTCCCCAGATTCGGTC 59.534 60.000 0.00 0.00 0.00 4.79
1566 2139 1.327690 TTCCTCCCCAGATTCGGTCG 61.328 60.000 0.00 0.00 0.00 4.79
1567 2140 1.756950 CCTCCCCAGATTCGGTCGA 60.757 63.158 0.00 0.00 0.00 4.20
1568 2141 1.437986 CTCCCCAGATTCGGTCGAC 59.562 63.158 7.13 7.13 0.00 4.20
1569 2142 2.017559 CTCCCCAGATTCGGTCGACC 62.018 65.000 25.28 25.28 0.00 4.79
1570 2143 2.355986 CCCCAGATTCGGTCGACCA 61.356 63.158 32.80 16.29 35.14 4.02
1571 2144 1.153628 CCCAGATTCGGTCGACCAC 60.154 63.158 32.80 19.88 35.14 4.16
1572 2145 1.153628 CCAGATTCGGTCGACCACC 60.154 63.158 32.80 17.91 42.69 4.61
1573 2146 1.605058 CCAGATTCGGTCGACCACCT 61.605 60.000 32.80 19.73 44.21 4.00
1574 2147 0.458543 CAGATTCGGTCGACCACCTG 60.459 60.000 32.80 25.60 44.21 4.00
1575 2148 0.898789 AGATTCGGTCGACCACCTGT 60.899 55.000 32.80 14.28 44.21 4.00
1576 2149 0.736325 GATTCGGTCGACCACCTGTG 60.736 60.000 32.80 16.26 44.21 3.66
1577 2150 2.781595 ATTCGGTCGACCACCTGTGC 62.782 60.000 32.80 4.76 44.21 4.57
1578 2151 4.293648 CGGTCGACCACCTGTGCA 62.294 66.667 32.80 0.00 44.21 4.57
1579 2152 2.110213 GGTCGACCACCTGTGCAA 59.890 61.111 29.75 0.00 42.84 4.08
1580 2153 2.251642 GGTCGACCACCTGTGCAAC 61.252 63.158 29.75 0.00 42.84 4.17
1581 2154 2.110213 TCGACCACCTGTGCAACC 59.890 61.111 0.00 0.00 34.36 3.77
1582 2155 3.345808 CGACCACCTGTGCAACCG 61.346 66.667 0.00 0.00 34.36 4.44
1583 2156 3.660111 GACCACCTGTGCAACCGC 61.660 66.667 0.00 0.00 34.36 5.68
1602 2175 3.087906 GGCCCTACCGTGTCCCAT 61.088 66.667 0.00 0.00 0.00 4.00
1603 2176 2.504519 GCCCTACCGTGTCCCATC 59.495 66.667 0.00 0.00 0.00 3.51
1604 2177 3.103091 GCCCTACCGTGTCCCATCC 62.103 68.421 0.00 0.00 0.00 3.51
1605 2178 2.792947 CCCTACCGTGTCCCATCCG 61.793 68.421 0.00 0.00 0.00 4.18
1606 2179 2.106332 CTACCGTGTCCCATCCGC 59.894 66.667 0.00 0.00 0.00 5.54
1607 2180 3.441011 CTACCGTGTCCCATCCGCC 62.441 68.421 0.00 0.00 0.00 6.13
1608 2181 3.968837 TACCGTGTCCCATCCGCCT 62.969 63.158 0.00 0.00 0.00 5.52
1609 2182 4.838152 CCGTGTCCCATCCGCCTG 62.838 72.222 0.00 0.00 0.00 4.85
1613 2186 4.554036 GTCCCATCCGCCTGCCTC 62.554 72.222 0.00 0.00 0.00 4.70
1616 2189 4.864334 CCATCCGCCTGCCTCCAC 62.864 72.222 0.00 0.00 0.00 4.02
1617 2190 4.864334 CATCCGCCTGCCTCCACC 62.864 72.222 0.00 0.00 0.00 4.61
1679 2252 4.096003 CCCTCCCCGCATCGTTGT 62.096 66.667 0.00 0.00 0.00 3.32
1680 2253 2.046314 CCTCCCCGCATCGTTGTT 60.046 61.111 0.00 0.00 0.00 2.83
1681 2254 2.398554 CCTCCCCGCATCGTTGTTG 61.399 63.158 0.00 0.00 0.00 3.33
1682 2255 3.039202 CTCCCCGCATCGTTGTTGC 62.039 63.158 0.00 0.00 36.74 4.17
1683 2256 3.055719 CCCCGCATCGTTGTTGCT 61.056 61.111 0.00 0.00 37.96 3.91
1684 2257 2.176546 CCCGCATCGTTGTTGCTG 59.823 61.111 0.00 0.00 37.96 4.41
1685 2258 2.324330 CCCGCATCGTTGTTGCTGA 61.324 57.895 0.00 0.00 37.96 4.26
1686 2259 1.154413 CCGCATCGTTGTTGCTGAC 60.154 57.895 0.00 0.00 37.96 3.51
1687 2260 1.154413 CGCATCGTTGTTGCTGACC 60.154 57.895 0.00 0.00 37.96 4.02
1688 2261 1.154413 GCATCGTTGTTGCTGACCG 60.154 57.895 0.00 0.00 37.14 4.79
1689 2262 1.154413 CATCGTTGTTGCTGACCGC 60.154 57.895 0.00 0.00 39.77 5.68
1690 2263 2.325082 ATCGTTGTTGCTGACCGCC 61.325 57.895 0.00 0.00 38.05 6.13
1691 2264 4.368808 CGTTGTTGCTGACCGCCG 62.369 66.667 0.00 0.00 38.05 6.46
1692 2265 4.683334 GTTGTTGCTGACCGCCGC 62.683 66.667 0.00 0.00 38.05 6.53
1708 2281 3.168528 GCCCCGGCCATTCCTCTA 61.169 66.667 2.24 0.00 34.56 2.43
1709 2282 2.752807 GCCCCGGCCATTCCTCTAA 61.753 63.158 2.24 0.00 34.56 2.10
1710 2283 1.451936 CCCCGGCCATTCCTCTAAG 59.548 63.158 2.24 0.00 0.00 2.18
1711 2284 1.227973 CCCGGCCATTCCTCTAAGC 60.228 63.158 2.24 0.00 0.00 3.09
1712 2285 1.700042 CCCGGCCATTCCTCTAAGCT 61.700 60.000 2.24 0.00 0.00 3.74
1713 2286 0.250081 CCGGCCATTCCTCTAAGCTC 60.250 60.000 2.24 0.00 0.00 4.09
1714 2287 0.250081 CGGCCATTCCTCTAAGCTCC 60.250 60.000 2.24 0.00 0.00 4.70
1715 2288 0.250081 GGCCATTCCTCTAAGCTCCG 60.250 60.000 0.00 0.00 0.00 4.63
1716 2289 0.882484 GCCATTCCTCTAAGCTCCGC 60.882 60.000 0.00 0.00 0.00 5.54
1717 2290 0.465705 CCATTCCTCTAAGCTCCGCA 59.534 55.000 0.00 0.00 0.00 5.69
1718 2291 1.539929 CCATTCCTCTAAGCTCCGCAG 60.540 57.143 0.00 0.00 0.00 5.18
1728 2301 3.369381 GCTCCGCAGCAATAGAGAA 57.631 52.632 0.00 0.00 46.06 2.87
1729 2302 1.216122 GCTCCGCAGCAATAGAGAAG 58.784 55.000 0.00 0.00 46.06 2.85
1730 2303 1.202463 GCTCCGCAGCAATAGAGAAGA 60.202 52.381 0.00 0.00 46.06 2.87
1731 2304 2.739932 GCTCCGCAGCAATAGAGAAGAA 60.740 50.000 0.00 0.00 46.06 2.52
2170 2743 5.269554 CCCCTAAAATAGATAATGGGGCA 57.730 43.478 0.00 0.00 45.14 5.36
2171 2744 5.650283 CCCCTAAAATAGATAATGGGGCAA 58.350 41.667 0.00 0.00 45.14 4.52
2172 2745 5.716703 CCCCTAAAATAGATAATGGGGCAAG 59.283 44.000 0.00 0.00 45.14 4.01
2173 2746 5.716703 CCCTAAAATAGATAATGGGGCAAGG 59.283 44.000 0.00 0.00 0.00 3.61
2174 2747 5.185828 CCTAAAATAGATAATGGGGCAAGGC 59.814 44.000 0.00 0.00 0.00 4.35
2175 2748 4.475919 AAATAGATAATGGGGCAAGGCT 57.524 40.909 0.00 0.00 0.00 4.58
2176 2749 4.475919 AATAGATAATGGGGCAAGGCTT 57.524 40.909 0.00 0.00 0.00 4.35
2177 2750 2.371658 AGATAATGGGGCAAGGCTTC 57.628 50.000 0.00 0.00 0.00 3.86
2178 2751 1.133356 AGATAATGGGGCAAGGCTTCC 60.133 52.381 0.00 1.75 0.00 3.46
2179 2752 0.105504 ATAATGGGGCAAGGCTTCCC 60.106 55.000 20.27 20.27 41.87 3.97
2183 2756 3.021263 GGGCAAGGCTTCCCCCTA 61.021 66.667 15.97 0.00 36.50 3.53
2184 2757 2.622447 GGGCAAGGCTTCCCCCTAA 61.622 63.158 15.97 0.00 36.50 2.69
2185 2758 1.076705 GGCAAGGCTTCCCCCTAAG 60.077 63.158 0.00 0.00 33.97 2.18
2186 2759 1.571773 GGCAAGGCTTCCCCCTAAGA 61.572 60.000 0.00 0.00 33.97 2.10
2187 2760 0.553333 GCAAGGCTTCCCCCTAAGAT 59.447 55.000 0.00 0.00 33.97 2.40
2188 2761 1.774856 GCAAGGCTTCCCCCTAAGATA 59.225 52.381 0.00 0.00 33.97 1.98
2189 2762 2.224646 GCAAGGCTTCCCCCTAAGATAG 60.225 54.545 0.00 0.00 33.97 2.08
2190 2763 3.318313 CAAGGCTTCCCCCTAAGATAGA 58.682 50.000 0.00 0.00 33.97 1.98
2191 2764 3.913163 CAAGGCTTCCCCCTAAGATAGAT 59.087 47.826 0.00 0.00 33.97 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.758440 GAGGGCACTGGACACACAGA 61.758 60.000 0.00 0.00 40.97 3.41
1 2 1.302033 GAGGGCACTGGACACACAG 60.302 63.158 0.00 0.00 44.03 3.66
2 3 2.828868 GAGGGCACTGGACACACA 59.171 61.111 0.00 0.00 0.00 3.72
3 4 2.357517 CGAGGGCACTGGACACAC 60.358 66.667 0.00 0.00 0.00 3.82
4 5 3.625897 CCGAGGGCACTGGACACA 61.626 66.667 0.00 0.00 0.00 3.72
5 6 1.823169 TTACCGAGGGCACTGGACAC 61.823 60.000 10.91 0.00 0.00 3.67
6 7 1.122632 TTTACCGAGGGCACTGGACA 61.123 55.000 10.91 0.00 0.00 4.02
7 8 0.672711 GTTTACCGAGGGCACTGGAC 60.673 60.000 10.91 0.00 0.00 4.02
8 9 1.675219 GTTTACCGAGGGCACTGGA 59.325 57.895 10.91 0.00 0.00 3.86
9 10 1.740296 CGTTTACCGAGGGCACTGG 60.740 63.158 0.00 0.00 39.56 4.00
10 11 1.290955 TCGTTTACCGAGGGCACTG 59.709 57.895 0.00 0.00 41.60 3.66
11 12 3.781760 TCGTTTACCGAGGGCACT 58.218 55.556 0.00 0.00 41.60 4.40
19 20 5.734855 ATTCTCCATTGAATCGTTTACCG 57.265 39.130 0.00 0.00 31.72 4.02
20 21 6.183360 ACGAATTCTCCATTGAATCGTTTACC 60.183 38.462 3.52 0.00 37.14 2.85
21 22 6.682863 CACGAATTCTCCATTGAATCGTTTAC 59.317 38.462 3.52 0.00 37.70 2.01
22 23 6.674519 GCACGAATTCTCCATTGAATCGTTTA 60.675 38.462 3.52 0.00 37.70 2.01
23 24 5.631026 CACGAATTCTCCATTGAATCGTTT 58.369 37.500 3.52 0.00 37.70 3.60
24 25 4.437390 GCACGAATTCTCCATTGAATCGTT 60.437 41.667 3.52 0.00 37.70 3.85
25 26 3.063997 GCACGAATTCTCCATTGAATCGT 59.936 43.478 3.52 0.00 38.90 3.73
26 27 3.063861 TGCACGAATTCTCCATTGAATCG 59.936 43.478 3.52 0.00 35.82 3.34
27 28 4.621068 TGCACGAATTCTCCATTGAATC 57.379 40.909 3.52 0.00 35.82 2.52
28 29 4.701651 TCTTGCACGAATTCTCCATTGAAT 59.298 37.500 3.52 0.00 38.19 2.57
29 30 4.071423 TCTTGCACGAATTCTCCATTGAA 58.929 39.130 3.52 0.00 0.00 2.69
30 31 3.436704 GTCTTGCACGAATTCTCCATTGA 59.563 43.478 3.52 0.00 0.00 2.57
31 32 3.438087 AGTCTTGCACGAATTCTCCATTG 59.562 43.478 3.52 0.00 0.00 2.82
32 33 3.679389 AGTCTTGCACGAATTCTCCATT 58.321 40.909 3.52 0.00 0.00 3.16
33 34 3.265791 GAGTCTTGCACGAATTCTCCAT 58.734 45.455 3.52 0.00 0.00 3.41
34 35 2.688507 GAGTCTTGCACGAATTCTCCA 58.311 47.619 3.52 0.00 0.00 3.86
159 160 9.369406 AGCCTAGCCTGCTAGTACGTAGTAATA 62.369 44.444 21.31 3.06 40.49 0.98
160 161 8.655826 AGCCTAGCCTGCTAGTACGTAGTAAT 62.656 46.154 21.31 0.00 45.72 1.89
161 162 7.435547 AGCCTAGCCTGCTAGTACGTAGTAA 62.436 48.000 21.31 0.00 40.61 2.24
205 215 4.151867 CCTTTACGTTAGTGCAGGTTTCTC 59.848 45.833 0.00 0.00 0.00 2.87
319 333 2.754552 CAGGACCAAACCCATGTACATG 59.245 50.000 26.02 26.02 38.51 3.21
320 334 2.291540 CCAGGACCAAACCCATGTACAT 60.292 50.000 1.41 1.41 0.00 2.29
328 342 1.599797 CACGACCAGGACCAAACCC 60.600 63.158 0.00 0.00 0.00 4.11
331 345 1.476110 CCTTTCACGACCAGGACCAAA 60.476 52.381 0.00 0.00 0.00 3.28
353 367 0.540597 GCAAGTTTTCCCTGCCTCCT 60.541 55.000 0.00 0.00 0.00 3.69
400 416 3.383620 TGTTCATTGTTCATGTTGGCC 57.616 42.857 0.00 0.00 34.06 5.36
488 504 5.128008 AGAGCTACCAACAGATACTCCTTTC 59.872 44.000 0.00 0.00 0.00 2.62
770 1112 0.684153 GGGGTAGGTGCACGTAGGTA 60.684 60.000 19.03 0.00 0.00 3.08
791 1133 6.209788 GGTCTGGGTTTATATAGAGGTGAGAG 59.790 46.154 0.00 0.00 0.00 3.20
811 1160 1.548081 TGATTTGCATGGTGGGTCTG 58.452 50.000 0.00 0.00 0.00 3.51
866 1387 5.792741 CTTCTGACTTCTGAGATCTTTGGT 58.207 41.667 0.00 0.00 0.00 3.67
868 1389 4.630940 GGCTTCTGACTTCTGAGATCTTTG 59.369 45.833 0.00 0.00 0.00 2.77
869 1390 4.323409 GGGCTTCTGACTTCTGAGATCTTT 60.323 45.833 0.00 0.00 0.00 2.52
870 1391 3.197549 GGGCTTCTGACTTCTGAGATCTT 59.802 47.826 0.00 0.00 0.00 2.40
871 1392 2.765699 GGGCTTCTGACTTCTGAGATCT 59.234 50.000 0.00 0.00 0.00 2.75
872 1393 2.765699 AGGGCTTCTGACTTCTGAGATC 59.234 50.000 0.00 0.00 0.00 2.75
873 1394 2.500910 CAGGGCTTCTGACTTCTGAGAT 59.499 50.000 2.18 0.00 46.18 2.75
874 1395 1.898472 CAGGGCTTCTGACTTCTGAGA 59.102 52.381 2.18 0.00 46.18 3.27
875 1396 1.675415 GCAGGGCTTCTGACTTCTGAG 60.675 57.143 10.89 0.00 46.18 3.35
876 1397 0.322975 GCAGGGCTTCTGACTTCTGA 59.677 55.000 10.89 0.00 46.18 3.27
877 1398 0.324285 AGCAGGGCTTCTGACTTCTG 59.676 55.000 10.89 0.00 46.18 3.02
880 1401 0.767375 TTCAGCAGGGCTTCTGACTT 59.233 50.000 10.89 0.00 46.18 3.01
886 1407 1.743252 CGAGGTTCAGCAGGGCTTC 60.743 63.158 0.00 0.00 36.40 3.86
919 1440 2.307934 TTTGCCTTGCTTGGTGTTTC 57.692 45.000 0.00 0.00 0.00 2.78
926 1447 3.992427 GGAGAAAAGATTTGCCTTGCTTG 59.008 43.478 0.00 0.00 0.00 4.01
938 1459 4.561254 TCTAGCTAGGGGGAGAAAAGAT 57.439 45.455 20.58 0.00 0.00 2.40
939 1460 4.078571 TGATCTAGCTAGGGGGAGAAAAGA 60.079 45.833 20.58 0.00 0.00 2.52
944 1470 3.967987 GTTTTGATCTAGCTAGGGGGAGA 59.032 47.826 20.58 2.19 0.00 3.71
946 1472 3.046374 GGTTTTGATCTAGCTAGGGGGA 58.954 50.000 20.58 1.68 0.00 4.81
949 1475 5.104735 ACAGAAGGTTTTGATCTAGCTAGGG 60.105 44.000 20.58 0.00 0.00 3.53
950 1476 5.983540 ACAGAAGGTTTTGATCTAGCTAGG 58.016 41.667 20.58 2.51 0.00 3.02
951 1477 6.872920 AGACAGAAGGTTTTGATCTAGCTAG 58.127 40.000 15.01 15.01 0.00 3.42
952 1478 6.127310 GGAGACAGAAGGTTTTGATCTAGCTA 60.127 42.308 0.00 0.00 0.00 3.32
953 1479 5.337975 GGAGACAGAAGGTTTTGATCTAGCT 60.338 44.000 0.00 0.00 0.00 3.32
954 1480 4.873259 GGAGACAGAAGGTTTTGATCTAGC 59.127 45.833 0.00 0.00 0.00 3.42
969 1497 1.527433 CTGTGCAGACGGGAGACAGA 61.527 60.000 0.00 0.00 36.89 3.41
990 1525 4.465512 GCCGCCATCGCTGTTGTG 62.466 66.667 0.00 0.00 0.00 3.33
1020 1555 1.214673 AGCAGCACCATCCTCATCAAT 59.785 47.619 0.00 0.00 0.00 2.57
1327 1895 4.474113 GTTACAGTTAGACCTGTGTCGAG 58.526 47.826 4.17 0.00 45.08 4.04
1334 1902 8.450964 CAAATAACATGGTTACAGTTAGACCTG 58.549 37.037 0.00 0.00 38.45 4.00
1394 1967 8.481314 AGAGACAATTCATACACATACTGTCAT 58.519 33.333 0.00 0.00 35.50 3.06
1397 1970 7.044181 CCAGAGACAATTCATACACATACTGT 58.956 38.462 0.00 0.00 36.82 3.55
1402 1975 6.305272 AGACCAGAGACAATTCATACACAT 57.695 37.500 0.00 0.00 0.00 3.21
1428 2001 5.449304 ACTTTTGAAATCGGTCGAAACATC 58.551 37.500 0.00 0.00 29.62 3.06
1449 2022 5.775701 ACTGATATTTAGACGCTCCCATACT 59.224 40.000 0.00 0.00 0.00 2.12
1450 2023 6.026947 ACTGATATTTAGACGCTCCCATAC 57.973 41.667 0.00 0.00 0.00 2.39
1451 2024 6.665992 AACTGATATTTAGACGCTCCCATA 57.334 37.500 0.00 0.00 0.00 2.74
1452 2025 5.552870 AACTGATATTTAGACGCTCCCAT 57.447 39.130 0.00 0.00 0.00 4.00
1453 2026 6.097839 AGTTAACTGATATTTAGACGCTCCCA 59.902 38.462 7.48 0.00 0.00 4.37
1455 2028 7.396190 CAGTTAACTGATATTTAGACGCTCC 57.604 40.000 28.17 0.00 46.59 4.70
1481 2054 5.633830 AAGTGACTGATGCGATCATTTTT 57.366 34.783 0.00 0.00 38.85 1.94
1482 2055 5.048504 ACAAAGTGACTGATGCGATCATTTT 60.049 36.000 0.00 0.00 38.85 1.82
1483 2056 4.456911 ACAAAGTGACTGATGCGATCATTT 59.543 37.500 0.00 0.00 38.85 2.32
1484 2057 4.005650 ACAAAGTGACTGATGCGATCATT 58.994 39.130 0.00 0.00 38.85 2.57
1485 2058 3.603532 ACAAAGTGACTGATGCGATCAT 58.396 40.909 0.00 0.00 38.85 2.45
1486 2059 3.044235 ACAAAGTGACTGATGCGATCA 57.956 42.857 0.00 0.00 37.76 2.92
1487 2060 4.153117 AGAAACAAAGTGACTGATGCGATC 59.847 41.667 0.00 0.00 0.00 3.69
1488 2061 4.067896 AGAAACAAAGTGACTGATGCGAT 58.932 39.130 0.00 0.00 0.00 4.58
1489 2062 3.466836 AGAAACAAAGTGACTGATGCGA 58.533 40.909 0.00 0.00 0.00 5.10
1490 2063 3.885484 AGAAACAAAGTGACTGATGCG 57.115 42.857 0.00 0.00 0.00 4.73
1491 2064 6.017933 CGAATAGAAACAAAGTGACTGATGC 58.982 40.000 0.00 0.00 0.00 3.91
1492 2065 7.121974 ACGAATAGAAACAAAGTGACTGATG 57.878 36.000 0.00 0.00 0.00 3.07
1493 2066 6.089551 CGACGAATAGAAACAAAGTGACTGAT 59.910 38.462 0.00 0.00 0.00 2.90
1494 2067 5.401376 CGACGAATAGAAACAAAGTGACTGA 59.599 40.000 0.00 0.00 0.00 3.41
1495 2068 5.388475 CCGACGAATAGAAACAAAGTGACTG 60.388 44.000 0.00 0.00 0.00 3.51
1496 2069 4.684703 CCGACGAATAGAAACAAAGTGACT 59.315 41.667 0.00 0.00 0.00 3.41
1497 2070 4.682860 TCCGACGAATAGAAACAAAGTGAC 59.317 41.667 0.00 0.00 0.00 3.67
1498 2071 4.873817 TCCGACGAATAGAAACAAAGTGA 58.126 39.130 0.00 0.00 0.00 3.41
1499 2072 5.347635 TGATCCGACGAATAGAAACAAAGTG 59.652 40.000 0.00 0.00 0.00 3.16
1500 2073 5.475719 TGATCCGACGAATAGAAACAAAGT 58.524 37.500 0.00 0.00 0.00 2.66
1501 2074 6.403333 TTGATCCGACGAATAGAAACAAAG 57.597 37.500 0.00 0.00 0.00 2.77
1502 2075 6.788684 TTTGATCCGACGAATAGAAACAAA 57.211 33.333 0.00 0.00 0.00 2.83
1503 2076 6.788684 TTTTGATCCGACGAATAGAAACAA 57.211 33.333 0.00 0.00 0.00 2.83
1504 2077 6.425721 AGTTTTTGATCCGACGAATAGAAACA 59.574 34.615 0.00 0.00 0.00 2.83
1505 2078 6.736853 CAGTTTTTGATCCGACGAATAGAAAC 59.263 38.462 0.00 0.95 0.00 2.78
1506 2079 6.425721 ACAGTTTTTGATCCGACGAATAGAAA 59.574 34.615 0.00 0.00 0.00 2.52
1507 2080 5.929992 ACAGTTTTTGATCCGACGAATAGAA 59.070 36.000 0.00 0.00 0.00 2.10
1508 2081 5.475719 ACAGTTTTTGATCCGACGAATAGA 58.524 37.500 0.00 0.00 0.00 1.98
1509 2082 5.220416 GGACAGTTTTTGATCCGACGAATAG 60.220 44.000 0.00 0.00 0.00 1.73
1510 2083 4.628333 GGACAGTTTTTGATCCGACGAATA 59.372 41.667 0.00 0.00 0.00 1.75
1511 2084 3.435671 GGACAGTTTTTGATCCGACGAAT 59.564 43.478 0.00 0.00 0.00 3.34
1512 2085 2.803956 GGACAGTTTTTGATCCGACGAA 59.196 45.455 0.00 0.00 0.00 3.85
1513 2086 2.409975 GGACAGTTTTTGATCCGACGA 58.590 47.619 0.00 0.00 0.00 4.20
1514 2087 1.126113 CGGACAGTTTTTGATCCGACG 59.874 52.381 5.61 0.00 45.32 5.12
1515 2088 1.136057 GCGGACAGTTTTTGATCCGAC 60.136 52.381 15.29 3.38 45.32 4.79
1516 2089 1.153353 GCGGACAGTTTTTGATCCGA 58.847 50.000 15.29 0.00 45.32 4.55
1517 2090 0.871722 TGCGGACAGTTTTTGATCCG 59.128 50.000 7.15 7.15 45.30 4.18
1518 2091 1.880027 AGTGCGGACAGTTTTTGATCC 59.120 47.619 10.52 0.00 0.00 3.36
1519 2092 3.555518 GAAGTGCGGACAGTTTTTGATC 58.444 45.455 10.52 0.00 39.60 2.92
1520 2093 2.032030 CGAAGTGCGGACAGTTTTTGAT 60.032 45.455 10.52 0.00 39.60 2.57
1521 2094 1.329292 CGAAGTGCGGACAGTTTTTGA 59.671 47.619 10.52 0.00 39.60 2.69
1522 2095 1.063469 ACGAAGTGCGGACAGTTTTTG 59.937 47.619 10.52 1.00 46.49 2.44
1523 2096 1.375551 ACGAAGTGCGGACAGTTTTT 58.624 45.000 10.52 0.00 46.49 1.94
1524 2097 3.074594 ACGAAGTGCGGACAGTTTT 57.925 47.368 10.52 0.00 46.49 2.43
1525 2098 4.848685 ACGAAGTGCGGACAGTTT 57.151 50.000 10.52 0.00 46.49 2.66
1537 2110 1.205893 CTGGGGAGGAAGAAGACGAAG 59.794 57.143 0.00 0.00 0.00 3.79
1538 2111 1.203137 TCTGGGGAGGAAGAAGACGAA 60.203 52.381 0.00 0.00 0.00 3.85
1539 2112 0.408309 TCTGGGGAGGAAGAAGACGA 59.592 55.000 0.00 0.00 0.00 4.20
1540 2113 1.490574 ATCTGGGGAGGAAGAAGACG 58.509 55.000 0.00 0.00 0.00 4.18
1541 2114 2.159028 CGAATCTGGGGAGGAAGAAGAC 60.159 54.545 0.00 0.00 0.00 3.01
1542 2115 2.111384 CGAATCTGGGGAGGAAGAAGA 58.889 52.381 0.00 0.00 0.00 2.87
1543 2116 1.139853 CCGAATCTGGGGAGGAAGAAG 59.860 57.143 0.00 0.00 0.00 2.85
1544 2117 1.204146 CCGAATCTGGGGAGGAAGAA 58.796 55.000 0.00 0.00 0.00 2.52
1545 2118 0.042731 ACCGAATCTGGGGAGGAAGA 59.957 55.000 0.00 0.00 0.00 2.87
1546 2119 0.466124 GACCGAATCTGGGGAGGAAG 59.534 60.000 0.00 0.00 0.00 3.46
1547 2120 1.327690 CGACCGAATCTGGGGAGGAA 61.328 60.000 0.00 0.00 0.00 3.36
1548 2121 1.756950 CGACCGAATCTGGGGAGGA 60.757 63.158 0.00 0.00 0.00 3.71
1549 2122 1.756950 TCGACCGAATCTGGGGAGG 60.757 63.158 0.00 0.00 0.00 4.30
1550 2123 1.437986 GTCGACCGAATCTGGGGAG 59.562 63.158 3.51 0.00 0.00 4.30
1551 2124 2.056223 GGTCGACCGAATCTGGGGA 61.056 63.158 20.85 0.00 0.00 4.81
1552 2125 2.355986 TGGTCGACCGAATCTGGGG 61.356 63.158 28.70 0.00 39.43 4.96
1553 2126 1.153628 GTGGTCGACCGAATCTGGG 60.154 63.158 28.70 0.00 39.43 4.45
1554 2127 1.153628 GGTGGTCGACCGAATCTGG 60.154 63.158 28.70 0.00 39.43 3.86
1555 2128 4.496670 GGTGGTCGACCGAATCTG 57.503 61.111 28.70 0.00 39.43 2.90
1562 2135 2.110213 TTGCACAGGTGGTCGACC 59.890 61.111 28.17 28.17 46.58 4.79
1563 2136 2.251642 GGTTGCACAGGTGGTCGAC 61.252 63.158 7.13 7.13 0.00 4.20
1564 2137 2.110213 GGTTGCACAGGTGGTCGA 59.890 61.111 1.10 0.00 0.00 4.20
1565 2138 3.345808 CGGTTGCACAGGTGGTCG 61.346 66.667 1.10 0.00 0.00 4.79
1566 2139 3.660111 GCGGTTGCACAGGTGGTC 61.660 66.667 1.10 0.00 42.15 4.02
1596 2169 4.554036 GAGGCAGGCGGATGGGAC 62.554 72.222 0.00 0.00 0.00 4.46
1599 2172 4.864334 GTGGAGGCAGGCGGATGG 62.864 72.222 0.00 0.00 0.00 3.51
1600 2173 4.864334 GGTGGAGGCAGGCGGATG 62.864 72.222 0.00 0.00 0.00 3.51
1662 2235 3.622060 AACAACGATGCGGGGAGGG 62.622 63.158 0.00 0.00 0.00 4.30
1663 2236 2.046314 AACAACGATGCGGGGAGG 60.046 61.111 0.00 0.00 0.00 4.30
1664 2237 3.039202 GCAACAACGATGCGGGGAG 62.039 63.158 0.00 0.00 33.57 4.30
1665 2238 3.053291 GCAACAACGATGCGGGGA 61.053 61.111 0.00 0.00 33.57 4.81
1670 2243 1.154413 CGGTCAGCAACAACGATGC 60.154 57.895 0.00 0.00 44.15 3.91
1691 2264 2.682582 CTTAGAGGAATGGCCGGGGC 62.683 65.000 14.65 14.65 43.43 5.80
1692 2265 1.451936 CTTAGAGGAATGGCCGGGG 59.548 63.158 2.18 0.00 43.43 5.73
1693 2266 1.227973 GCTTAGAGGAATGGCCGGG 60.228 63.158 2.18 0.00 43.43 5.73
1694 2267 0.250081 GAGCTTAGAGGAATGGCCGG 60.250 60.000 0.00 0.00 43.43 6.13
1695 2268 0.250081 GGAGCTTAGAGGAATGGCCG 60.250 60.000 0.00 0.00 43.43 6.13
1696 2269 0.250081 CGGAGCTTAGAGGAATGGCC 60.250 60.000 0.00 0.00 0.00 5.36
1697 2270 3.297391 CGGAGCTTAGAGGAATGGC 57.703 57.895 0.00 0.00 0.00 4.40
1711 2284 2.879002 TCTTCTCTATTGCTGCGGAG 57.121 50.000 0.00 0.00 0.00 4.63
2149 2722 5.716703 CCTTGCCCCATTATCTATTTTAGGG 59.283 44.000 0.00 0.00 36.32 3.53
2150 2723 5.185828 GCCTTGCCCCATTATCTATTTTAGG 59.814 44.000 0.00 0.00 0.00 2.69
2151 2724 6.012745 AGCCTTGCCCCATTATCTATTTTAG 58.987 40.000 0.00 0.00 0.00 1.85
2152 2725 5.964288 AGCCTTGCCCCATTATCTATTTTA 58.036 37.500 0.00 0.00 0.00 1.52
2153 2726 4.819610 AGCCTTGCCCCATTATCTATTTT 58.180 39.130 0.00 0.00 0.00 1.82
2154 2727 4.475919 AGCCTTGCCCCATTATCTATTT 57.524 40.909 0.00 0.00 0.00 1.40
2155 2728 4.411013 GAAGCCTTGCCCCATTATCTATT 58.589 43.478 0.00 0.00 0.00 1.73
2156 2729 3.245407 GGAAGCCTTGCCCCATTATCTAT 60.245 47.826 0.00 0.00 0.00 1.98
2157 2730 2.108250 GGAAGCCTTGCCCCATTATCTA 59.892 50.000 0.00 0.00 0.00 1.98
2158 2731 1.133356 GGAAGCCTTGCCCCATTATCT 60.133 52.381 0.00 0.00 0.00 1.98
2159 2732 1.332195 GGAAGCCTTGCCCCATTATC 58.668 55.000 0.00 0.00 0.00 1.75
2160 2733 0.105504 GGGAAGCCTTGCCCCATTAT 60.106 55.000 3.13 0.00 39.89 1.28
2161 2734 1.309688 GGGAAGCCTTGCCCCATTA 59.690 57.895 3.13 0.00 39.89 1.90
2162 2735 2.039462 GGGAAGCCTTGCCCCATT 59.961 61.111 3.13 0.00 39.89 3.16
2167 2740 1.076705 CTTAGGGGGAAGCCTTGCC 60.077 63.158 6.42 6.42 40.98 4.52
2168 2741 0.553333 ATCTTAGGGGGAAGCCTTGC 59.447 55.000 0.00 0.00 0.00 4.01
2169 2742 3.318313 TCTATCTTAGGGGGAAGCCTTG 58.682 50.000 0.00 0.00 0.00 3.61
2170 2743 3.726837 TCTATCTTAGGGGGAAGCCTT 57.273 47.619 0.00 0.00 0.00 4.35
2171 2744 3.953364 ATCTATCTTAGGGGGAAGCCT 57.047 47.619 0.00 0.00 0.00 4.58


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.